6HAS

Crystal Structure of the small subunit-like domain of Rubisco activase from Nostoc sp. (strain PCC 7120)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.38 Å
  • R-Value Free: 0.189 
  • R-Value Work: 0.153 
  • R-Value Observed: 0.155 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Dual Functions of a Rubisco Activase in Metabolic Repair and Recruitment to Carboxysomes.

Flecken, M.Wang, H.Popilka, L.Hartl, F.U.Bracher, A.Hayer-Hartl, M.

(2020) Cell 183: 457-473.e20

  • DOI: https://doi.org/10.1016/j.cell.2020.09.010
  • Primary Citation of Related Structures:  
    6HAS, 6Z1D, 6Z1E, 6Z1F, 6Z1G

  • PubMed Abstract: 

    Rubisco, the key enzyme of CO 2 fixation in photosynthesis, is prone to inactivation by inhibitory sugar phosphates. Inhibited Rubisco undergoes conformational repair by the hexameric AAA+ chaperone Rubisco activase (Rca) in a process that is not well understood. Here, we performed a structural and mechanistic analysis of cyanobacterial Rca, a close homolog of plant Rca. In the Rca:Rubisco complex, Rca is positioned over the Rubisco catalytic site under repair and pulls the N-terminal tail of the large Rubisco subunit (RbcL) into the hexamer pore. Simultaneous displacement of the C terminus of the adjacent RbcL opens the catalytic site for inhibitor release. An alternative interaction of Rca with Rubisco is mediated by C-terminal domains that resemble the small Rubisco subunit. These domains, together with the N-terminal AAA+ hexamer, ensure that Rca is packaged with Rubisco into carboxysomes. The cyanobacterial Rca is a dual-purpose protein with functions in Rubisco repair and carboxysome organization.


  • Organizational Affiliation

    Department of Cellular Biochemistry, Max Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ribulose bisphosphate carboxylase/oxygenase activase
A, B
90Nostoc sp. PCC 7120 = FACHB-418Mutation(s): 0 
Gene Names: rcaalr1533
UniProt
Find proteins for P58555 (Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576))
Explore P58555 
Go to UniProtKB:  P58555
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP58555
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NI
Query on NI

Download Ideal Coordinates CCD File 
C [auth A]NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.38 Å
  • R-Value Free: 0.189 
  • R-Value Work: 0.153 
  • R-Value Observed: 0.155 
  • Space Group: P 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 59.732α = 90
b = 59.732β = 90
c = 83.305γ = 120
Software Package:
Software NamePurpose
XDSdata reduction
Aimlessdata scaling
PHENIXphasing
REFMACrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-01-15
    Type: Initial release
  • Version 1.1: 2020-09-23
    Changes: Derived calculations
  • Version 1.2: 2021-01-27
    Changes: Database references
  • Version 1.3: 2024-11-06
    Changes: Data collection, Database references, Refinement description, Structure summary